DICOM conversion - dcm2nii(x)

Helpful info on Chris Rorden’s github page.

Copied from above (in case it gets lost!)

Alternatives

• dcm2nii

   is the predecessor of dcm2niix. It is deprecated for modern images, but does handle image formats that predate DICOM (proprietary Elscint, GE and Siemens formats).

• Python dcmstack DICOM to Nifti conversion with meta data preservation.

• dicm2nii

   is written in Matlab. The Matlab language makes this very scriptable.

• dicom2nifti

   uses the scriptable Python wrapper utilizes the high performance GDCMCONV executables.

• dicomtonifti

   leverages VTK.

• dinifti

   is focused on conversion of Siemens data.

• DWIConvert

   converts DICOM images to NRRD and NIfTI formats.

• mcverter

   has great support for various vendors.

• mri_convert

   is part of the popular FreeSurfer package. In my limited experience this tool works well for GE and Siemens data, but fails with Philips 4D datasets.

• MRtrix mrconvert

   is a useful general purpose image converter and handles DTI data well. It is an outstanding tool for modern Philips enhanced images.

• PET CT viewer

   for Fiji can load DICOM images and export as NIfTI.

• Plastimatch

   is a Swiss Army knife - it computes registration, image processing, statistics and it has a basic image format converter that can convert some DICOM images to NIfTI or NRRD.

• Simple Dicom Reader 2 (Sdr2)

   uses dcmtk to read DICOM images and convert them to the NIfTI format.

• SlicerHeart extension

   is specifically designed to help 3D Slicer support ultra sound (US) images stored as DICOM.

• spec2nii

   converts MR spectroscopy to NIFTI.

• SPM12

   is one of the most popular tools in the field. It includes DICOM to NIfTI conversion. Being based on Matlab it is easy to script.